I was under the impression that I could re-flash the stock profile any time I wanted. I would re-flash it if it had to go to the dealership for 'warranty' work.
I thought I read that your system did not add to the flash write counter so it would be very difficult for the dealer to know it had been tuned previously.
Please explain what conditions the engine shuts off for while the tune is active. The phrase "When the cruise control subsystem is disarmed, auto-stop events are re-calibrated with sport and performance strictly in mind." is very vague.